Aliases for PPP4R3B Gene
Aliases for PPP4R3B Gene
External Ids for PPP4R3B Gene
- HGNC: 29267
- Entrez Gene: 57223
- Ensembl: ENSG00000275052
- OMIM: 610352
- UniProtKB: Q5MIZ7
Previous HGNC Symbols for PPP4R3B Gene
- SMEK2
Summaries for PPP4R3B Gene
GeneCards Summary for PPP4R3B Gene
PPP4R3B (Protein Phosphatase 4 Regulatory Subunit 3B) is a Protein Coding gene. Diseases associated with PPP4R3B include Mixed Germ Cell Cancer. Among its related pathways are Integrated Breast Cancer Pathway and Glucagon signaling pathway. An important paralog of this gene is PPP4R3A.
UniProtKB/Swiss-Prot for PPP4R3B Gene
-
Regulatory subunit of serine/threonine-protein phosphatase 4 (PP4). May regulate the activity of PPP4C at centrosomal microtubule organizing centers.
Additional gene information for PPP4R3B Gene
- Monarch Initiative
- Search for PPP4R3B at DataMed
- Search for PPP4R3B at HumanCyc
No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PPP4R3B Gene
Genomics for PPP4R3B Gene
GeneHancer (GH) Regulatory Elements for PPP4R3B Gene
Promoters and enhancers for PPP4R3B Gene
| GeneHancer (GH) Identifier | GH Type | GH Score |
GH Sources | Gene Association Score | Total Score | TSS distance (kb) | Number of Genes Away | Size (kb) | Transcription Factor Binding Sites |
Gene Targets |
|---|---|---|---|---|---|---|---|---|---|---|
| GH02J055614 | Promoter/Enhancer | 2.3 | EPDnew Ensembl ENCODE dbSUPER | 657.9 | +1.5 | 1543 | 5 | CLOCK MLX DMAP1 IRF4 YY1 SLC30A9 E2F8 ZNF143 SP3 NFYC | ENSG00000272606 PPP4R3B GC02P055618 RPS27A PNPT1 PRORSD1P CLHC1 GC02P055601 | |
| GH02J055838 | Enhancer | 1.4 | Ensembl ENCODE dbSUPER | 4.3 | -220.6 | -220604 | 2.3 | FOXA2 ARID4B SIN3A FEZF1 DMAP1 ETS1 YY1 RXRA SP5 REST | EFEMP1 ENSG00000240401 PPP4R3B GC02P055762 | |
| GH02J055585 | Enhancer | 0.5 | Ensembl | 8.2 | +33.0 | 32979 | 1 | JUND JUN CEBPB EP300 | ENSG00000212175 ENSG00000272606 PPP4R3B GC02P055601 | |
| GH02J055712 | Enhancer | 0.4 | ENCODE | 7.6 | -95.3 | -95338 | 4.1 | ZNF24 ZNF644 ATF2 | PNPT1 MIR217 PPP4R3B CLHC1 EFEMP1 ENSG00000272606 GC02P055700 GC02P055762 | |
| GH02J054770 | Enhancer | 0.6 | ENCODE | 4.1 | +846.7 | 846702 | 2.7 | JUN MAFG FOSL1 MAFF ZNF316 JUND FOS RCOR1 MAFK CHD2 | EML6 LOC105374667 SPTBN1 PPP4R3B GC02P054774 |
- Elite GeneHancer and/or Elite GeneHancer-gene association
Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)
GeneHancers around PPP4R3B on UCSC Golden Path with GeneCards custom track
Regulatory Element Products
Genomic Locations for PPP4R3B Gene
Genomic Locations for PPP4R3B Gene
- chr2:55,547,292-55,618,880
- (GRCh38/hg38)
- Size:
- 71,589 bases
- Orientation:
- Minus strand
- chr2:55,774,428-55,846,015
- (GRCh37/hg19)
- Size:
- 71,588 bases
- Orientation:
- Minus strand
Genomic View for PPP4R3B Gene
Genes around PPP4R3B on UCSC Golden Path with GeneCards custom track
- Cytogenetic band:
-
- 2p16.1 by Entrez Gene
- 2p16.1 by HGNC
- 2p16.1 by Ensembl
PPP4R3B Gene in genomic location: bands according to
Ensembl, locations according to GeneLoc
(and/or Entrez Gene and/or Ensembl if different)
Genomic Neighborhood
• Exon Structure
• Gene Density
RefSeq DNA sequence for PPP4R3B Gene
Proteins for PPP4R3B Gene
-
Protein details for PPP4R3B Gene (UniProtKB/Swiss-Prot)
- Protein Symbol:
- Q5MIZ7-P4R3B_HUMAN
- Recommended name:
- Serine/threonine-protein phosphatase 4 regulatory subunit 3B
- Protein Accession:
- Q5MIZ7
- Q6P9B0
- Q86XB8
- Q9BQJ0
- Q9BRK2
- Q9H913
- Q9P2G0
Protein attributes for PPP4R3B Gene
- Size:
- 849 amino acids
- Molecular mass:
- 97458 Da
- Quaternary structure:
-
- Serine/threonine-protein phosphatase 4 (PP4) occurs in different assemblies of the catalytic and one or more regulatory subunits. Component of the PP4 complex PPP4C-PPP4R2-PPP4R3B.
- SequenceCaution:
-
- Sequence=BAA92625.1; Type=Erroneous initiation; Evidence={ECO:0000305};
Post-translational modifications for PPP4R3B Gene
Other Protein References for PPP4R3B Gene
- ENSEMBL proteins:
- REFSEQ proteins:
Antibody Products
-
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-
Abcam antibodies for PPP4R3B
- Invitrogen Antibodies for PPP4R3B (AFLGC-PPP4R3B)
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Protein Products
-
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Assay Products
No data available for DME Specific Peptides for PPP4R3B Gene
Domains & Families for PPP4R3B Gene
Gene Families for PPP4R3B Gene
- HGNC:
- Human Protein Atlas (HPA):
-
- Predicted intracellular proteins
Protein Domains for PPP4R3B Gene
- InterPro:
- ProtoNet:
Suggested Antigen Peptide Sequences for PPP4R3B Gene
- GenScript: Design optimal peptide antigens:
Graphical View of Domain Structure for InterPro Entry
Q5MIZ7- Family:
-
- Belongs to the SMEK family.
Function for PPP4R3B Gene
Molecular function for PPP4R3B Gene
- UniProtKB/Swiss-Prot Function:
- Regulatory subunit of serine/threonine-protein phosphatase 4 (PP4). May regulate the activity of PPP4C at centrosomal microtubule organizing centers.
Phenotypes From GWAS Catalog for PPP4R3B Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0005515 | protein binding | IPI | 16085932 |
Phenotypes for PPP4R3B Gene
- GenomeRNAi human phenotypes for PPP4R3B:
Animal Model Products
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-
CRISPR Products
-
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-
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- GenScript: Design CRISPR guide RNA sequences for PPP4R3B
miRNA for PPP4R3B Gene
- miRTarBase miRNAs that target PPP4R3B
miRNA Products
Inhibitory RNA Products
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Clone Products
-
OriGene ORF clones in human for PPP4R3B
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- genomics-online: cdna clones - Search results for available SMEK2 gene related products
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- Applied Biological Materials Clones for PPP4R3B
-
Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more
Cell Line Products
-
Horizon Cell Lines for PPP4R3B
No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PPP4R3B Gene
Localization for PPP4R3B Gene
Subcellular locations from UniProtKB/Swiss-Prot for PPP4R3B Gene
- Cytoplasm. Cytoplasm, cytoskeleton, microtubule organizing center, centrosome. Nucleus. Note=In interphase localized in the cytoplasm and (with higher levels) the nucleus. During metaphase located in pericentriolar regions.
| Compartment | Confidence |
|---|---|
| nucleus | 5 |
| cytoskeleton | 4 |
| cytosol | 1 |
- Centrosome (3)
- Nuclear speckles (3)
- Nucleoplasm (3)
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0005634 | nucleus | IEA | -- |
| GO:0005654 | nucleoplasm | IDA | -- |
| GO:0005737 | cytoplasm | IEA | -- |
| GO:0005813 | centrosome | IDA | -- |
| GO:0005815 | microtubule organizing center | IEA | -- |
Pathways & Interactions for PPP4R3B Gene
| SuperPathway | Contained pathways | ||
|---|---|---|---|
| 1 | Glucagon signaling pathway | ||
| 2 | Integrated Breast Cancer Pathway | ||
Pathways by source for PPP4R3B Gene
1 BioSystems pathway for PPP4R3B Gene
1 KEGG pathway for PPP4R3B Gene
Interacting Proteins for PPP4R3B Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0006470 | protein dephosphorylation | IEA | -- |
| GO:0019216 | regulation of lipid metabolic process | IEA | -- |
| GO:0045722 | positive regulation of gluconeogenesis | IEA | -- |
No data available for SIGNOR curated interactions for PPP4R3B Gene
Transcripts for PPP4R3B Gene
mRNA/cDNA for PPP4R3B Gene
- (19) REFSEQ mRNAs :
- (341) Selected AceView cDNA sequences:
- (6) Ensembl transcripts including schematic representations, and UCSC links where relevant :
-
- ENST00000611717 5243 bps (uc032nny.2)
- ENST00000616288 4310 bps (uc032nnx.2)
- ENST00000616407 4385 bps (uc032nnw.2)
- ENST00000482826 435 bps (uc061jij.1)
- ENST00000470801 597 bps (uc061jik.1)
CRISPR Products
-
OriGene CRISPR knockouts for PPP4R3B
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- Applied Biological Materials CRISPR for PPP4R3B
-
Vectors and viruses for KO, Activation, Repression, and more
- GenScript: Design CRISPR guide RNA sequences for PPP4R3B
miRNA Products
Inhibitory RNA Products
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Clone Products
-
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- genomics-online: cdna clones - Search results for available SMEK2 gene related products
- orf clones - Search results for available SMEK2 gene related products
- Applied Biological Materials Clones for PPP4R3B
-
Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more
Expression for PPP4R3B Gene
NURSA nuclear receptor signaling pathways regulating expression of PPP4R3B Gene:
PPP4R3BmRNA Expression by UniProt/SwissProt for PPP4R3B Gene:
Q5MIZ7-P4R3B_HUMAN
Tissue specificity:
Moderately expressed in tissues and specific brain regions examined.
Evidence on tissue expression from TISSUES for PPP4R3B Gene
- Nervous system(4.8)
Primer Products
-
OriGene qPCR primer pairs for PPP4R3B
-
OriGene qPCR primer pairs and template standards for PPP4R3B
- genomics-online: primer clones - Search results for available SMEK2 gene related products
Gene Expression Assay Products
No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for PPP4R3B Gene
Orthologs for PPP4R3B Gene
This gene was present in the common ancestor of eukaryotes.
| Organism | Taxonomy | Gene | Similarity | Type | Details |
|---|---|---|---|---|---|
| chimpanzee (Pan troglodytes) |
Mammalia | SMEK2 33 |
|
||
| dog (Canis familiaris) |
Mammalia | SMEK2 33 |
|
||
| cow (Bos Taurus) |
Mammalia | SMEK2 33 |
|
||
| rat (Rattus norvegicus) |
Mammalia | Smek2 33 |
|
||
| mouse (Mus musculus) |
Mammalia | Smek2 33 |
|
||
| Ppp4r3b 16 |
|
||||
| chicken (Gallus gallus) |
Aves | SMEK2 33 |
|
||
| tropical clawed frog (Silurana tropicalis) |
Amphibia | smek2 33 |
|
||
| Str.10217 33 |
|
||||
| African clawed frog (Xenopus laevis) |
Amphibia | MGC53159 33 |
|
||
| zebrafish (Danio rerio) |
Actinopterygii | smek2 33 |
|
||
| fruit fly (Drosophila melanogaster) |
Insecta | flfl 33 |
|
||
| African malaria mosquito (Anopheles gambiae) |
Insecta | AgaP_AGAP003402 33 |
|
||
| rice (Oryza sativa) |
Liliopsida | Os.16549 33 |
|
- Species where no ortholog for PPP4R3B was found in the sources mined by GeneCards:
-
- A. gosspyii yeast (Ashbya gossypii)
- Actinobacteria (Mycobacterium tuberculosis)
- Alicante grape (Vitis vinifera)
- alpha proteobacteria (Wolbachia pipientis)
- amoeba (Dictyostelium discoideum)
- Archea (Pyrococcus horikoshii)
- baker's yeast (Saccharomyces cerevisiae)
- barley (Hordeum vulgare)
- beta proteobacteria (Neisseria meningitidis)
- bread mold (Neurospora crassa)
- Chromalveolata (Phytophthora infestans)
- common water flea (Daphnia pulex)
- corn (Zea mays)
- E. coli (Escherichia coli)
- filamentous fungi (Aspergillus nidulans)
- Firmicute bacteria (Streptococcus pneumoniae)
- fission yeast (Schizosaccharomyces pombe)
- green algae (Chlamydomonas reinhardtii)
- honey bee (Apis mellifera)
- K. lactis yeast (Kluyveromyces lactis)
- lizard (Anolis carolinensis)
- loblloly pine (Pinus taeda)
- malaria parasite (Plasmodium falciparum)
- medicago trunc (Medicago Truncatula)
- moss (Physcomitrella patens)
- oppossum (Monodelphis domestica)
- orangutan (Pongo pygmaeus)
- pig (Sus scrofa)
- platypus (Ornithorhynchus anatinus)
- rainbow trout (Oncorhynchus mykiss)
- rice blast fungus (Magnaporthe grisea)
- schistosome parasite (Schistosoma mansoni)
- sea anemone (Nematostella vectensis)
- sea squirt (Ciona intestinalis)
- sea squirt (Ciona savignyi)
- sea urchin (Strongylocentrotus purpuratus)
- sorghum (Sorghum bicolor)
- soybean (Glycine max)
- stem rust fungus (Puccinia graminis)
- sugarcane (Saccharum officinarum)
- thale cress (Arabidopsis thaliana)
- tomato (Lycopersicon esculentum)
- toxoplasmosis (Toxoplasma gondii)
- Trichoplax (Trichoplax adhaerens)
- wheat (Triticum aestivum)
- worm (Caenorhabditis elegans)
Evolution for PPP4R3B Gene
- ENSEMBL:
- Gene Tree for PPP4R3B (if available)
- TreeFam:
- Gene Tree for PPP4R3B (if available)
- Aminode:
- Evolutionary constrained regions (ECRs) for PPP4R3B: view image
Paralogs for PPP4R3B Gene
Pseudogenes.org Pseudogenes for PPP4R3B Gene
Variants for PPP4R3B Gene
| SNP ID | Clin | Chr 02 pos | Variation | AA Info | Type |
|---|---|---|---|---|---|
| rs1000011209 | -- | 55,564,322(-) | T/C | coding_sequence_variant, missense_variant, non_coding_transcript_variant | |
| rs1000021861 | -- | 55,581,949(-) | A/G | intron_variant | |
| rs1000042525 | -- | 55,616,229(-) | G/A | intron_variant | |
| rs1000105937 | -- | 55,570,224(-) | T/C | intron_variant | |
| rs1000119507 | -- | 55,601,539(-) | C/G | intron_variant |
| Variant ID | Type | Subtype | PubMed ID |
|---|---|---|---|
| esv2759050 | CNV | gain | 17122850 |
| esv3575244 | CNV | gain | 25503493 |
| nsv1160801 | CNV | duplication | 26073780 |
| nsv520581 | CNV | loss | 19592680 |
| nsv525434 | CNV | loss | 19592680 |
| nsv829430 | CNV | loss | 20364138 |
| nsv834080 | CNV | loss | 17160897 |
Residual Variation Intolerance Score:
3.83% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score:
2.49;
43.57% of all genes are more intolerant (likely to be disease-causing)
Additional Variant Information for PPP4R3B Gene
- SNPedia medical, phenotypic, and genealogical associations of SNPs for
- PPP4R3B
SNP Genotyping and Copy Number Assay Products
No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PPP4R3B Gene
Disorders for PPP4R3B Gene
| Disorder | Aliases | PubMed IDs |
|---|---|---|
| mixed germ cell cancer |
|
|
Search PPP4R3B in MalaCards
View complete list of genes associated with diseases
Additional Disease Information for PPP4R3B
No data available for UniProtKB/Swiss-Prot and Genatlas for PPP4R3B Gene
Publications for PPP4R3B Gene
- A PP4-phosphatase complex dephosphorylates gamma-H2AX generated during DNA replication. (PMID: 18614045) Chowdhury D … Lieberman J (Molecular cell 2008) 2 3 4 58
- A novel, evolutionarily conserved protein phosphatase complex involved in cisplatin sensitivity. (PMID: 16085932) Gingras AC … Aebersold R (Molecular & cellular proteomics : MCP 2005) 2 3 4 58
- A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PMID: 16964243) Beausoleil SA … Gygi SP (Nature biotechnology 2006) 3 4 58
- Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 3 4 58
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
Products for PPP4R3B Gene
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Sources for PPP4R3B Gene
- (1) GeneCards
- (2) HGNC
- (3) EntrezGene
- (4) Swiss-Prot
- (5) Ensembl
- (6) OMIM
- (7) GeneLoc
- (8) Gene Wiki
- (9) UCSC
- (10) PhosphoSitePlus
- (11) GO
- (12) TrEMBL
- (13) InterPro
- (14) ProtoNet
- (15) Blocks
- (16) MGI
- (17) IUBMB
- (18) KEGG
- (19) MINT
- (20) STRING
- (21) IntAct
- (22) Novoseek
- (23) PharmGKB
- (24) DrugBank
- (25) HMDB
- (26) UniGene
- (27) AceView
- (28) ASD
- (29) ECgene
- (30) GeneAnnot
- (31) CGAP SAGE
- (32) SOURCE
- (33) HomoloGene
- (34) PanEnsembl
- (35) euGenes
- (36) SGD
- (37) FlyBase
- (38) WormBase
- (39) Pseudogene
- (40) DGV
- (41) dbSNP
- (42) GenAtlas
- (43) HGMD
- (44) GAD
- (45) BGMUT
- (46) HuGE
- (47) Atlas
- (48) Cell Signaling Technology
- (49) GenBank
- (50) H-invDB
- (51) HORDE
- (52) HUGE
- (53) IMGT
- (54) Leiden
- (55) miRBase
- (56) DME
- (57) OriGene
- (58) PubMed
- (59) R&D Systems
- (60) TGDB
- (61) Tocris
- (62) Abcam
- (63) Novus Biologicals
- (64) ProSpec
- (65) Sino Biological
- (66) GenScript
- (67) Qiagen
- (68) Cloud-Clone Corp.
- (69) OCA
- (70) Proteopedia
- (71) MOPED
- (72) neXtProt
- (73) Reactome
- (74) GeneGo (Thomson Reuters)
- (75) fRNAdb
- (76) DISEASES
- (77) SIMAP
- (78) GenomeRNAi
- (79) LifeMap
- (80) miRTarBase
- (81) MalaCards
- (82) Invitrogen
- (83) BitterDB
- (84) Vector BioLabs
- (85) ESI-BIO
- (86) RefSeq
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